Locus 5713

Sequence ID 3L_DroMel_CAF1
Location 15,594,956 – 15,595,070
Length 114
Max. P 0.630809
window9040 window9041

overview

Window 0

Location 15,594,956 – 15,595,070
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.95
Mean single sequence MFE -26.02
Consensus MFE -20.50
Energy contribution -19.78
Covariance contribution -0.72
Combinations/Pair 1.23
Mean z-score -1.60
Structure conservation index 0.79
SVM decision value 0.20
SVM RNA-class probability 0.630809
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15594956 114 + 23771897
GUGUCUAGGCUAAAUGCUUCAUUGCUACAAAAAGCACUGACUAAAGAGUAUAACAAAU------AGUUAUCGUCAAUAGACCUGGGGUGUGGUUAGUCAAAAGUAUUUAGCAACUGACUG
..(((...(((((((((((...((((......)))).(((((((.((..(((((....------.)))))..))..((.(((...))).)).))))))).)))))))))))....))).. ( -31.70)
>DroSec_CAF1 18198 114 + 1
GUGUCUAGGCUAAAUGCUACAUUGCUACAAAAAGCAAUGACUAAAGUGUAUAACAAAU------AGUUAUCGUCAAUAGAUUUGGGGUGUGGUUAGUCAAAAGUAUUUAGCAUCUGACUG
..(((...((((((((((..((((((......))))))((((((..(..((..(((((------.(((......)))..)))))..))..).))))))...))))))))))....))).. ( -31.30)
>DroSim_CAF1 18240 120 + 1
GUGUCUAGGCUAAAUGCUACUUUGCUACAAAAAGCAAUGACUAAAGAGUAUAACAAAUAACAAAAGUUAUCUUCAAUAGAUUUGGGGUGUGGUUAGUCAAAAGUAUUUAGCAUCUGACUG
..(((...((((((((((...(((((......)))))(((((((...((((..(((((.....(((....)))......)))))..))))..)))))))..))))))))))....))).. ( -32.60)
>DroEre_CAF1 18394 110 + 1
GUGUCUAGGCAAAAUGUU---CAGCUACGAAAAGCAAUGGCUAAAAAGUAUAACAAA-------UUUUAUCGUCAAUAAACCUAGGGUGUGGUUGGUCAAAAGUAUUUAGCAUCUGACUG
..(((...((.(((((.(---(((((((.........((((...(((((.......)-------))))...))))....(((...))))))))))).......))))).))....))).. ( -16.90)
>DroYak_CAF1 19610 110 + 1
GUGUCUAAGCGAAAUGUU---CAGCUACAAAAAGCAAUGGCUAAAAAUUAUAACAAA-------AGUUAUCGUCAAUAAACCAGGGGUGUGGUUAUCCAAAAGUAUUUAGCAUCUGACUG
..(((...((....(((.---.....)))....))....((((((.((((((((...-------.)))))..............(((((....)))))...))).))))))....))).. ( -17.60)
>consensus
GUGUCUAGGCUAAAUGCU_C_UUGCUACAAAAAGCAAUGACUAAAGAGUAUAACAAAU______AGUUAUCGUCAAUAGACCUGGGGUGUGGUUAGUCAAAAGUAUUUAGCAUCUGACUG
..(((...((((((((((.....(((......)))..(((((.......(((((...........)))))........((((........)))))))))..))))))))))....))).. (-20.50 = -19.78 +  -0.72)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,594,956 – 15,595,070
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.95
Mean single sequence MFE -22.76
Consensus MFE -14.80
Energy contribution -15.92
Covariance contribution 1.12
Combinations/Pair 1.07
Mean z-score -1.87
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.518981
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15594956 114 - 23771897
CAGUCAGUUGCUAAAUACUUUUGACUAACCACACCCCAGGUCUAUUGACGAUAACU------AUUUGUUAUACUCUUUAGUCAGUGCUUUUUGUAGCAAUGAAGCAUUUAGCCUAGACAC
..(((((..(((((((.(((((((((((...........(((....))).(((((.------....))))).....))))))).((((......))))..)))).))))))))).))).. ( -28.00)
>DroSec_CAF1 18198 114 - 1
CAGUCAGAUGCUAAAUACUUUUGACUAACCACACCCCAAAUCUAUUGACGAUAACU------AUUUGUUAUACACUUUAGUCAUUGCUUUUUGUAGCAAUGUAGCAUUUAGCCUAGACAC
..(((((..(((((((.((...((((((........(((.....)))...(((((.------....))))).....))))))((((((......))))))..)).))))))))).))).. ( -23.30)
>DroSim_CAF1 18240 120 - 1
CAGUCAGAUGCUAAAUACUUUUGACUAACCACACCCCAAAUCUAUUGAAGAUAACUUUUGUUAUUUGUUAUACUCUUUAGUCAUUGCUUUUUGUAGCAAAGUAGCAUUUAGCCUAGACAC
..(((((..(((((((.((..(((((((............((....))(((((((....)))))))..........)))))))(((((......)))))...)).))))))))).))).. ( -25.10)
>DroEre_CAF1 18394 110 - 1
CAGUCAGAUGCUAAAUACUUUUGACCAACCACACCCUAGGUUUAUUGACGAUAAAA-------UUUGUUAUACUUUUUAGCCAUUGCUUUUCGUAGCUG---AACAUUUUGCCUAGACAC
..((((((...........))))))..........((((((....((((((.....-------.)))))).....((((((...(((.....)))))))---))......)))))).... ( -19.70)
>DroYak_CAF1 19610 110 - 1
CAGUCAGAUGCUAAAUACUUUUGGAUAACCACACCCCUGGUUUAUUGACGAUAACU-------UUUGUUAUAAUUUUUAGCCAUUGCUUUUUGUAGCUG---AACAUUUCGCUUAGACAC
..(((.(((((((((...........(((((......)))))...((((((.....-------.)))))).....))))).))))(((......)))..---.............))).. ( -17.70)
>consensus
CAGUCAGAUGCUAAAUACUUUUGACUAACCACACCCCAGGUCUAUUGACGAUAACU______AUUUGUUAUACUCUUUAGUCAUUGCUUUUUGUAGCAA_G_AGCAUUUAGCCUAGACAC
..(((....(((((((.....(((((((...........(((....))).(((((...........))))).....)))))))..(((......)))........)))))))...))).. (-14.80 = -15.92 +   1.12)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:25 2006